1. PU.1 Regulates Expression of the Interleukin-7 Receptor in Lymphoid Progenitors 
Rodney P. DeKoter, Hyun-Jun Lee, Harinder Singh 
Immunity 
Volume 16, Issue 2, Pages (February 2002)
DOI: /S (02)

2. Figure 1
Analysis of Early B Lineage Gene Expression in PU.1+/− and PU.1−/− Hematopoietic Progenitors
Total RNA was prepared from whole 14.5 d.p.c. fetal liver (PU.1+/−) or from lineage-depleted (Lin−) fetal liver progenitors from PU.1+/− and PU.1−/− fetuses. The indicated transcripts were analyzed by RT-PCR after normalization with β-actin.
Immunity  , DOI: ( /S (02) )

3. Figure 2 Analysis of PU.1 Binding Sites in the IL-7Rα Gene
(A) Schematic structure of the murine IL-7Rα gene promoter and downstream region indicating the PU.1 binding sites that were identified using a position weight matrix algorithim. Sequence alignment of a conserved region spanning PU.1 binding site 2 in the murine and human IL-7Rα genes is shown below the schematic.
(B) Gel shift assay with PU.1 binding sites in the IL-7Rα gene. A control high-affinity PU.1-binding site (λB), PU.1 site 1, or PU.1 site 2 oligonucleotides were incubated with PU.1 protein generated by in vitro translation. Lanes 1, 5, and 9 contain free probes (P) whereas lanes 2, 6, and 10 represent incubations with control translation lysates (-). PU.1 translation lysates were used at two different concentrations, 2 μl (+) and 4 μl (++).
(C) PU.1 can activate transcription from the downstream IL-7Rα binding site. pGL3-based reporter constructs containing three tandem copies of the wild-type or mutant PU.1 binding site 2 were transiently transfected into 38B9 pro-B cells. After normalization with a reference construct, the luciferase activities of the two reporters are represented in relation to the control pGL3 reporter.
Immunity  , DOI: ( /S (02) )

4. Figure 3
Chromatin Immunoprecipitation Analysis of PU.1 Binding to the IL-7Rα Gene
(A) Formaldehyde-crosslinked chromatin from wild-type fetal liver-derived pro-B cells was immunoprecipitated using control rabbit IgG or affinity purified anti-PU.1 (αPU.1) antibodies as described in the Experimental Procedures. PCR was performed on input and immunoprecipitated DNA using primer pairs spanning PU.1 binding site 1, binding site 2, and exon 5 in the IL-7Rα gene. PCR reactions included α-32P dCTP and the products were visualized by autoradiography. The control lane represents a PCR reaction conducted in the absence of template DNA.
(B) In vivo crosslinking of PU.1 in WEHI-231 B cells and J774.1 macrophages. Formaldehyde-crosslinked chromatin was analyzed as described in (A) using primer pairs spanning PU.1 binding sites in the IL-7Rα gene, Igκ 3' enhancer, and c-fms promoter. The HPRT gene promoter was used as a negative control.
Immunity  , DOI: ( /S (02) )

5. Figure 4
Transduction with an IL-7Rα Retroviral Vector Restores IL-7-Dependent Proliferation of PU.1−/− Progenitors
(A) Schematic structures of MSCV-based retroviral constructs. LTR, long terminal repeat; IRES, internal ribosomal entry site; and EGFP, enhanced green fluorescent protein.
(B) Flow cytometric analysis of cultures of PU.1+/− or PU.1−/− progenitors after retroviral transduction. Lin− progenitors were transduced with MIGR1, MIG-PU.1, or MSCV-IL-7Rα retroviral vectors by coculture with retroviral packaging cell lines. Transduced progenitor cells were expanded for 10–14 days on S17 stromal cells with Interleukin-7 (IL-7). Cells from these cultures were analyzed by flow cytometry for expression of CD19 and GFP.
Immunity  , DOI: ( /S (02) )

6. Figure 5
IL-7Rα-Transduced, PU.1−/− Progenitors Differentiate into Pro-B Cells
(A) Flow cytometric analysis of CD19 and IL-7R expression on control (PU.1+/− + MIGR1), PU.1-rescued (PU.1−/− + MIG-PU.1) and IL-7Rα-rescued (PU.1−/− + MSCV-IL-7Rα) cell lines. IL-7R expression on IL-7Rα-rescued cells is shown after gating on CD19+ or CD19− cells.
(B) RT-PCR analysis of B lineage gene expression. Total RNA was prepared from the cell lines indicated above as well as from the S17 stromal cell line as a negative control. Transcripts for the indicated genes were analyzed as described in the legend to Figure 1. EBF expression in a stromal cell line has been previously noted (Nutt et al., 1997)
(C) PCR analysis of immunoglobulin heavy-chain (IgH) D-J recombination. Genomic DNA was prepared from the cell lines described above, as well as from the S17 stromal cell line as a negative control. DNA was analyzed by PCR using a primer 5' to most DH segments and a primer 3' of JH4. PCR products were separated using agarose gel electrophoresis and visualized by Southern blotting with a radiolabeled DHFL16-JH4 probe.
Immunity  , DOI: ( /S (02) )

7. Figure 6 Analysis of IL-7Rα-Transduced, PU.1−/− Clones
(A) Flow cytometric analysis of CD19. IL-7Rα-transduced, PU.1−/− clones were isolated by plating in methylcellulose. Left and right panels show a CD19+ and CD19− clone, respectively.
(B) RT-PCR analysis of lymphoid and myeloid gene expression in IL-7Rα-transduced, PU.1−/− clones. RNA was prepared from wild-type pro-B cells, macrophages, or IL-7Rα-transduced, PU.1−/− cells. The CD19+ and CD19− clones (lanes 4 and 5) were isolated from the IL-7Rα-transduced, PU.1−/− cell line (PU.1−/− + MSCV-IL-7Rα, lane 3). The indicated transcripts were analyzed by RT-PCR after normalization with β-actin.
Immunity  , DOI: ( /S (02) )

8. Figure 7
Spi-B Can Promote Differentiation of PU.1−/− Progenitors into Pro-B Cells, but Is Not Required
(A) Spi-B rescues IL-7-dependent proliferation of PU.1−/− progenitors and promotes differentiation into pro-B cells as well as macrophages. A schematic structure of the MIG-Spi-B retroviral construct is shown. Lin− progenitors (PU.1+/− or PU.1−/−) were transduced with MIGR1 or MIG-Spi-B retroviral vectors by coculture with packaging cell lines. Transduced progenitor cells were expanded for 10–14 days on S17 stromal cells with IL-7. Cells were analyzed by flow cytometry for expression of CD19 and GFP (upper panels) or Mac-1 and GFP (lower panels).
(B) RT-PCR analysis of gene expression in IL-7Rα-transduced, PU.1−/− or PU.1−/−Spi-B−/− cell lines. Total RNA was prepared from wild-type splenocytes as a positive control, S17 stromal cells as a negative control, or from the indicated PU.1−/− and PU.1−/−Spi-B−/− pro-B cell lines. PU.1, Spi-B, Spi-C, and Pax5 transcripts were analyzed as described in the legend to Figure 1.
Immunity  , DOI: ( /S (02) )